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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TAGTCTCTCATCCTTTGGATCTGGAGGGCCTTTTGGATTTGATGCATTTTCTGACATGTTTAAAAATCAAAAGAAGAAGTCAGATTCATCCAAAAATAAGgtaaaggttttatgagtttcttgctcaacatttatcttttaaaactgatgtgcataggtaaagaaatgtgtctaaggaaatagttaagcttctaagattgcttaagtagtatgcaatgtgttggcttatgagatagaaaatcatgatatttcttttctcttagagcaccgcttaattgttgtttctctttcag

Basic information

species Arabidopsis thaliana
transcript AT4G25030.1
intron # 3
splice site 5'
intron type U2

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|86032141|gb|DR327894.1|DR327894
EST:     CTGACATGTTTAAAAATCAAAAGAAGAAGTCAGATTCATCCAAAAATAAG                         GGAGGAAACCACGAAG
genomic: CTGACATGTTTAAAAATCAAAAGAAGAAGTCAGATTCATCCAAAAATAAGgtaaaggttt ... tctctttcagGGAGGAAACCACGAAG
EST: gi|86032126|gb|DR327879.1|DR327879
EST:     CTGACATGTTTAAAAATCAAAAGAAGAAGTCAGATTCATCCAAAAATAAG                         GGAGGAAACCACGAAGCCATNNGGCGACGAATGGCTTAAAACAGGAAACTG
genomic: CTGACATGTTTAAAAATCAAAAGAAGAAGTCAGATTCATCCAAAAATAAGgtaaaggttt ... tctctttcagGGAGGAAACCACGAAGCCATG-GGCGACGAATGGCTTAAAACAGGAAACTG
EST: gi|301501095|gb|HO206635.1|HO206635
EST:     CTGACATGTTTAAAAATCAAAAGAAGAAGTCAGATTCATCCAAAAATAAG                         GGAGGAAACCACGAAGCCATGGGCGACGAATGGCTTAAAACAGGAAACTGC
genomic: CTGACATGTTTAAAAATCAAAAGAAGAAGTCAGATTCATCCAAAAATAAGgtaaaggttt ... tctctttcagGGAGGAAACCACGAAGCCATGGGCGACGAATGGCTTAAAACAGGAAACTGC
EST: gi|124868378|gb|EH952815.1|EH952815
EST:     TCAGATTCATCCAAAAATAAG                         GGAGGAAACCGCGAAGCCATGGGCGACGAATGGCTTAAAACAGGAAACTGC
genomic: TCAGATTCATCCAAAAATAAGgtaaaggttt ... tctctttcagGGAGGAAACCACGAAGCCATGGGCGACGAATGGCTTAAAACAGGAAACTGC
EST: gi|301501844|gb|HO207384.1|HO207384
EST:     CTGACATGTTTAAAAATCAAAAGAAGAAGTCAGATTCATCCAAAAATAAG                         GGAGGAAACCACGAAGCCATGGGCGACGAAT
genomic: CTGACATGTTTAAAAATCAAAAGAAGAAGTCAGATTCATCCAAAAATAAGgtaaaggttt ... tctctttcagGGAGGAAACCACGAAGCCATGGGCGACGAAT
EST: gi|86032134|gb|DR327887.1|DR327887
EST:     CTGACATGTTTAAAAATCAAAAGAAGAAGTCAGATTCATCCAAAAATAAG                         GGAGGAAACCACGAAGCCATGGGCGACGAATGGCTTAAAACAGGAAACTGC
genomic: CTGACATGTTTAAAAATCAAAAGAAGAAGTCAGATTCATCCAAAAATAAGgtaaaggttt ... tctctttcagGGAGGAAACCACGAAGCCATGGGCGACGAATGGCTTAAAACAGGAAACTGC
EST: gi|19875699|gb|AU236530.1|AU236530
EST:     CTGACATGTTTAAAAATCAAAAGAAGAAGTCAGATTCATNCNAAAATNAG                         GGAGGAAACCACGAAGCCATGGGCGACGAATGGCTTAAAACAGGAAACTGC
genomic: CTGACATGTTTAAAAATCAAAAGAAGAAGTCAGATTCATCCAAAAATAAGgtaaaggttt ... tctctttcagGGAGGAAACCACGAAGCCATGGGCGACGAATGGCTTAAAACAGGAAACTGC
EST: gi|86032130|gb|DR327883.1|DR327883
EST:     CTGACATGTTTGAAAATCAAAAGAAGAAGTCAGATTCATCCAAAAATAAG                         GGAGGAAACCACGAAGCCATGGGCGACGAATGGCTTAAAACAGGAAACTGC
genomic: CTGACATGTTTAAAAATCAAAAGAAGAAGTCAGATTCATCCAAAAATAAGgtaaaggttt ... tctctttcagGGAGGAAACCACGAAGCCATGGGCGACGAATGGCTTAAAACAGGAAACTGC
EST: gi|86032129|gb|DR327882.1|DR327882
EST:     CTGACATGTTTAAAAATCAAAAGAAGAAGTCAGATTCATCCAAAAATAAG                         GGAGGAAACCACGAAGCCATGGGCGACGAATGGCTTAAAACAGGAAACTGC
genomic: CTGACATGTTTAAAAATCAAAAGAAGAAGTCAGATTCATCCAAAAATAAGgtaaaggttt ... tctctttcagGGAGGAAACCACGAAGCCATGGGCGACGAATGGCTTAAAACAGGAAACTGC
EST: gi|86032127|gb|DR327880.1|DR327880
EST:     CTGACATGTTTAAAAATCAAAAGAAGAAGTCAGATTCATCCAAAAATAAG                         GGAGGAAACCACGAAGCCATGGGCGAAGAATGGCTTAAAACAGGAAACTGC
genomic: CTGACATGTTTAAAAATCAAAAGAAGAAGTCAGATTCATCCAAAAATAAGgtaaaggttt ... tctctttcagGGAGGAAACCACGAAGCCATGGGCGACGAATGGCTTAAAACAGGAAACTGC
EST: gi|86032140|gb|DR327893.1|DR327893
EST:     CTGACATGTTTAAAAATCAAAAGAAGAAGTCAGATTCATCCAAAAATAAG                         GGAGGAAACCACGAAGCCATGGGCGACGAATGGCTTAAAACAGGAAACTGC
genomic: CTGACATGTTTAAAAATCAAAAGAAGAAGTCAGATTCATCCAAAAATAAGgtaaaggttt ... tctctttcagGGAGGAAACCACGAAGCCATGGGCGACGAATGGCTTAAAACAGGAAACTGC
EST: gi|301501084|gb|HO206624.1|HO206624
EST:     CTGACATGTTTAAAAATCAAAAGAAGAAGTCAGATTCATCCAAAAATAAG                         GGAGGAAACCACGAAGCCATGGGCGACGAATGGCTTAAAACAGGAAACTGC
genomic: CTGACATGTTTAAAAATCAAAAGAAGAAGTCAGATTCATCCAAAAATAAGgtaaaggttt ... tctctttcagGGAGGAAACCACGAAGCCATGGGCGACGAATGGCTTAAAACAGGAAACTGC
EST: gi|86032139|gb|DR327892.1|DR327892
EST:     CTGACATGTTTAAAAATCAAAAGAAGAAGTCAGATTCATCCAAAAATAAG                         GGAGGAAACCACGAAGCCATGGGCGACGAATGGCTTAAAACAGGAAACTGC
genomic: CTGACATGTTTAAAAATCAAAAGAAGAAGTCAGATTCATCCAAAAATAAGgtaaaggttt ... tctctttcagGGAGGAAACCACGAAGCCATGGGCGACGAATGGCTTAAAACAGGAAACTGC

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TAGTCTCTCATCCTTTGGATCTGGAGGGCCTTTTGGATTTGATGCATTTTCTGACATGTTTAAAAATCAAAAGAAGAAGTCAGATTCATCCAAAAATAAGgtaaaggttttatgagtttcttgctcaacatttatcttttaaaactgatgtgcataggtaaagaaatgtgtctaaggaaatagttaagcttctaagattgcttaagtagtatgcaatgtgttggcttatgagatagaaaatcatgatatttcttttctcttagagcaccgcttaattgttgtttctctttcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT